Si Ho Choi
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View article: Echinochrome A inhibits epithelial–mesenchymal transition and induces cell death mediated by DNA damage in human triple-negative breast cancer cells
Echinochrome A inhibits epithelial–mesenchymal transition and induces cell death mediated by DNA damage in human triple-negative breast cancer cells Open
View article: Characterization of 3D Organotypic Culture of Mouse Adipose-Derived Stem Cells
Characterization of 3D Organotypic Culture of Mouse Adipose-Derived Stem Cells Open
Although stem cells are a promising avenue for harnessing the potential of adipose tissue, conventional two-dimensional (2D) culture methods have limitations. This study explored the use of three-dimensional (3D) cultures to preserve the r…
View article: Inducing positive inotropy in human iPSC-derived cardiac muscle by gene editing-based activation of the cardiac α-myosin heavy chain
Inducing positive inotropy in human iPSC-derived cardiac muscle by gene editing-based activation of the cardiac α-myosin heavy chain Open
Human induced pluripotent stem cells and their differentiation into cardiac myocytes (hiPSC-CMs) provides a unique and valuable platform for studies of cardiac muscle structure–function. This includes studies centered on disease etiology, …
View article: Quantitative and qualitative mutational impact of ionizing radiation on normal cells
Quantitative and qualitative mutational impact of ionizing radiation on normal cells Open
The comprehensive genomic impact of ionizing radiation (IR), a carcinogen, on healthy somatic cells remains unclear. Using large-scale whole-genome sequencing (WGS) of clones expanded from irradiated murine and human single cells, we revea…
View article: Breast cancer malignancy is governed by regulation of the macroH2A2/TM4SF1 axis, the AKT/NF‐κB pathway, and elevated MMP13 expression
Breast cancer malignancy is governed by regulation of the macroH2A2/TM4SF1 axis, the AKT/NF‐κB pathway, and elevated MMP13 expression Open
The histone variant, macroH2A (mH2A) influences gene expression through epigenetic regulation. Tumor suppressive function of mH2A isoforms has been reported in various cancer types, but few studies have investigated the functional role of …
View article: Low-Dose Ionizing Radiation-Crosslinking Immunoprecipitation (LDIR-CLIP) Identified Irradiation-Sensitive RNAs for RNA-Binding Protein HuR-Mediated Decay
Low-Dose Ionizing Radiation-Crosslinking Immunoprecipitation (LDIR-CLIP) Identified Irradiation-Sensitive RNAs for RNA-Binding Protein HuR-Mediated Decay Open
Although ionizing radiation (IR) is widely used for therapeutic and research purposes, studies on low-dose ionizing radiation (LDIR) are limited compared with those on other IR approaches, such as high-dose gamma irradiation and ultraviole…
View article: Low-Dose Ionizing Radiation-Crosslinking Immunoprecipitation (LDIR-CLIP) Identified Irradiation-Sensitive RNAs for RNA-Binding Protein HuR-Mediated Decay
Low-Dose Ionizing Radiation-Crosslinking Immunoprecipitation (LDIR-CLIP) Identified Irradiation-Sensitive RNAs for RNA-Binding Protein HuR-Mediated Decay Open
Although ionizing radiation (IR) is widely used for therapeutic and research purposes, studies on low-dose ionizing radiation (LDIR) are limited compared with those on other IR approaches, such as high-dose gamma irradiation and ultraviole…
View article: Evaluation of Radiation Sensitivity Differences in Mouse Liver Tumor Organoids Using CRISPR/Cas9-Mediated Gene Mutation
Evaluation of Radiation Sensitivity Differences in Mouse Liver Tumor Organoids Using CRISPR/Cas9-Mediated Gene Mutation Open
Background To assess the radiosensitivity of liver tumors harboring different genetic mutations, mouse liver tumors were generated in vivo through the hydrodynamic injection of clustered regularly interspaced short palindromic repeat/caspa…
View article: Genomic targets and selective inhibition of DNA methyltransferase isoforms
Genomic targets and selective inhibition of DNA methyltransferase isoforms Open
Background DNA methylation in the human genome is established and maintained by DNA methyltransferases (DNMTs). DNMT isoforms show differential expression by cell lineage and during development, but much remains to be elucidated about thei…
View article: A cleavage-based surrogate reporter for the evaluation of CRISPR–Cas9 cleavage efficiency
A cleavage-based surrogate reporter for the evaluation of CRISPR–Cas9 cleavage efficiency Open
CRISPR–Cas9 is a powerful tool for genome engineering, but its efficiency largely depends on guide RNA (gRNA). There are multiple methods available to evaluate the efficiency of gRNAs, including the T7E1 assay, surveyor nuclease assay, dee…
View article: Mutational impact and signature of ionizing radiation
Mutational impact and signature of ionizing radiation Open
Whole-genome sequencing (WGS) of human tumors and normal cells exposed to various carcinogens has revealed distinct mutational patterns that provide deep insights into the DNA damage and repair processes. Although ionizing radiation (IR) i…
View article: Longitudinal Imaging of Liver Cancer Using MicroCT and Nanoparticle Contrast Agents in CRISPR/Cas9-Induced Liver Cancer Mouse Model
Longitudinal Imaging of Liver Cancer Using MicroCT and Nanoparticle Contrast Agents in CRISPR/Cas9-Induced Liver Cancer Mouse Model Open
Introduction: Micro-computed tomography with nanoparticle contrast agents may be a suitable tool for monitoring the time course of the development and progression of tumors. Here, we suggest a practical and convenient experimental method f…
View article: Dux facilitates post-implantation development, but is not essential for zygotic genome activation†
Dux facilitates post-implantation development, but is not essential for zygotic genome activation† Open
Double homeobox genes are unique to eutherian mammals. It has been proposed that the DUXC clade of the double homeobox gene family, which is present in multicopy long tandem arrays, plays an essential role in zygotic genome activation (ZGA…
View article: Low level DUX4 expression disrupts myogenesis through deregulation of myogenic gene expression
Low level DUX4 expression disrupts myogenesis through deregulation of myogenic gene expression Open
Loss of silencing of the DUX4 gene on chromosome 4 causes facioscapulohumeral muscular dystrophy. While high level DUX4 expression induces apoptosis, the effects of low level DUX4 expression on human myogenic cells are not well understood.…
View article: Smek1/2 is a nuclear chaperone and cofactor for cleaved Wnt receptor Ryk, regulating cortical neurogenesis
Smek1/2 is a nuclear chaperone and cofactor for cleaved Wnt receptor Ryk, regulating cortical neurogenesis Open
Significance Receptor-like tyrosine kinase (Ryk) is a Wnt receptor and is important for many developmental processes, including cranial facial development, neurogenesis, and axon guidance. However, little is known about the role of the int…
View article: Downregulation of UHRF1 increases tumor malignancy by activating the CXCR4/AKT-JNK/IL-6/Snail signaling axis in hepatocellular carcinoma cells
Downregulation of UHRF1 increases tumor malignancy by activating the CXCR4/AKT-JNK/IL-6/Snail signaling axis in hepatocellular carcinoma cells Open
UHRF1 (ubiquitin-like, with PHD and RING finger domains 1) plays a crucial role in DNA methylation, chromatin remodeling and gene expression and is aberrantly upregulated in various types of human cancers. However, the precise role of UHRF…
View article: Smek promotes corticogenesis through regulating Mbd3’s stability and Mbd3/NuRD complex recruitment to genes associated with neurogenesis
Smek promotes corticogenesis through regulating Mbd3’s stability and Mbd3/NuRD complex recruitment to genes associated with neurogenesis Open
The fate of neural progenitor cells (NPCs) during corticogenesis is determined by a complex interplay of genetic or epigenetic components, but the underlying mechanism is incompletely understood. Here, we demonstrate that Suppressor of Mek…
View article: Transcriptional Inhibitors Identified in a 160,000-Compound Small-Molecule DUX4 Viability Screen
Transcriptional Inhibitors Identified in a 160,000-Compound Small-Molecule DUX4 Viability Screen Open
Facioscapulohumeral muscular dystrophy is a genetically dominant, currently untreatable muscular dystrophy. It is caused by mutations that enable expression of the normally silent DUX4 gene, which encodes a pathogenic transcription factor.…
View article: Low-dose irradiation promotes Rad51 expression by down-regulating miR-193b-3p in hepatocytes
Low-dose irradiation promotes Rad51 expression by down-regulating miR-193b-3p in hepatocytes Open
Current evidence indicates that there is a relationship between microRNA (miRNA)-mediated gene silencing and low-dose irradiation (LDIR) responses. Here, alterations of miRNA expression in response to LDIR exposure in male BALB/c mice and …
View article: DUX4 recruits p300/CBP through its C-terminus and induces global H3K27 acetylation changes
DUX4 recruits p300/CBP through its C-terminus and induces global H3K27 acetylation changes Open
Ectopic expression of the double homeodomain transcription factor DUX4 causes facioscapulohumeral muscular dystrophy (FSHD). Mechanisms of action of DUX4 are currently unknown. Using immortalized human myoblasts with a titratable DUX4 tran…
View article: DNA-binding sequence specificity of DUX4
DNA-binding sequence specificity of DUX4 Open
These studies illuminate the DNA-binding sequence preferences of DUX4.
View article: MacroH2A1 downregulation enhances the stem-like properties of bladder cancer cells by transactivation of Lin28B
MacroH2A1 downregulation enhances the stem-like properties of bladder cancer cells by transactivation of Lin28B Open
View article: Studies on the alteration of dna methylation in cancer
Studies on the alteration of dna methylation in cancer Open
"Epigenetics" can be defined as heritable changes in gene expression that are not due to changes in the DNA sequence (Holliday, 1987). Epigenetic can explain how different tissues that are genetically identical can have tissue specific phe…